Basic Information
VIS ID
TVIS30003322
Fusion event
HIV-ARFGAP1 integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr20
Cytoband
q13.33
Reference genome
GRCh37/hg19
Start
61912098/63280746 (Hg38)
End
61912098/63280746 (Hg38)
Orient
+
Location type
Intronic
Target gene
ARFGAP1
miRNAs that regulate target gene
hsa-mir-93-3p ; hsa-mir-423-3p ; hsa-mir-30c-5p
Nearest miRNA
hsa-mir-1-1/Upstream/41904; hsa-mir-1914/Downstream/6062;
Nearest TSS
ENST00000382410/Upstream/7428; ENST00000520022/Downstream/3369;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/7397, chr20-CpG: 25/Downstream/3836
Upstream sequence
CATCTTTAGGGAAGAAAAGCGCATTTTTCCAGCCTGTGTGTGGGCTTCATTTTTGTGGCCCTTCCTTCTGCTGCCTTTTGCTGGGAAGCTGCTCTCTGGG
Downstream sequence
GAAGGCAGCTCAGCTTGGTGATCTCTCAAGTGAGGGTCCCTTTGCACTTCCTTTAGGAGGAAGAGGGTGAGTTGTGATTGAAATGAGACGTTTATTTTTT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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